Error after quick installation - ResolvePackageNotFound: libgcc-ng[version='>=9.4.0']

[pkerrwall]

I have installed rnaflow on ubuntu. After I installed nextflow and conda, I try to run the test with the following command:
nextflow run ~/software/rnaflow -profile test,conda,local

This is the output with the error that I am getting:
N E X T F L O W ~ version 21.10.6
Launching /home/wallke/software/rnaflow/main.nf [golden_wescoff] - revision: 4a512a6ad6

Profile: test,conda,local

Current User: wallke
Nextflow-version: 21.10.6
Starting time: 2022-04-22T10:24:33.030457-05:00
Workdir location:
/home/wallke/rnaflow_test/work
Launchdir location:
/home/wallke/rnaflow_test
Permanent cache directory:
nextflow-autodownload-databases
Conda cache directory:
conda
Configuration files:
[/home/wallke/software/rnaflow/nextflow.config]
Cmd line:
nextflow run /home/wallke/software/rnaflow -profile test,conda,local

CPUs to use: 2, maximal CPUs to use: 4

WARNING: not a stable execution. Please use -r for full reproducibility.

R N A F L O W : R N A - S E Q A S S E M B L Y & D I F F E R E N T I A L G E N E E X P R E S S I O N A N A L Y S I S
= = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = = =
Output path: results
Strandedness unstranded
Read mode: single-end
TPM threshold: 1
Comparisons: all
Nanopore mode: false

executor > local (8)
executor > local (8)
[- ] process > get_test_data:get_reduced_genome_test -
[- ] process > get_test_data:get_reduced_annotation_test -
[- ] process > download_sortmerna:sortmernaGet -
[- ] process > preprocess_illumina:fastqcPre (MAQCB_rep1) -
[- ] process > preprocess_illumina:fastp -
[- ] process > preprocess_illumina:fastqcPost -
[- ] process > preprocess_illumina:extract_tar_bz2 -
[- ] process > preprocess_illumina:sortmerna -
[- ] process > preprocess_illumina:hisat2index -
[- ] process > preprocess_illumina:hisat2 -
[- ] process > preprocess_illumina:index_bam -
[- ] process > expression_reference_based:featurecounts -
[- ] process > expression_reference_based:format_annotation_gene_rows -
[- ] process > expression_reference_based:format_annotation -
[- ] process > expression_reference_based:tpm_filter -
[- ] process > expression_reference_based:deseq2 -
[f1/e2c45e] process > expression_reference_based:multiqc_sample_names (1) [100%] 1 of 1 ✔
[- ] process > expression_reference_based:multiqc -
Creating env using conda: /home/wallke/software/rnaflow/envs/fastp.yaml [cache /home/wallke/rnaflow_test/conda/fastp-3e6e702456ac1f373ced1ed39b827af4]
Error executing process > 'preprocess_illumina:fastp (MAQCA_rep2)'

Caused by:
Failed to create Conda environment
command: conda env create --prefix /home/wallke/rnaflow_test/conda/fastp-3e6e702456ac1f373ced1ed39b827af4 --file /home/wallke/software/rnaflow/envs/fastp.yaml
status : 1
message:
ResolvePackageNotFound:
- libgcc-ng[version='>=9.4.0']

[hoelzer]

Hi @pkerrwall ! Thanks for your interest in our pipeline!

First, can you please try to use the latest release of RNAflow and let nextflow install the pipeline?

nextflow pull hoelzer-lab/rnaflow # maybe run 2x if the next command does not work
nextflow run -r 1.3.0 hoelzer-lab/rnaflow -profile test,conda,local

If this does not work and again causes

ResolvePackageNotFound:
- libgcc-ng[version='>=9.4.0']

there seems to be an issue in resolving the conda environment for fastp on your system. If so, does this cause the same error?

conda create -n fastp-rnaflow-test -c bioconda fastp=0.23.1 

If this is also the case, can you switch to docker instead of conda? Then the environment for fastp will come pre-compiled and with all needed dependencies in a container.